Aside

Contact

Language Skills

R
R/Shiny
Python
SQL
Bash
Javascript
Git
Windows/Linux/Mac environments



Publications

I have coauthored numerous publications which can be found at vasantmarur.net/publication/

Disclaimer

Made with the R package pagedown.

The source code is available github.com/vasantm/cv.

Last updated on 2021-05-07.

Main

Vasant Marur

Versatile Bioinformatician and Data Scientist with 15+ years’ experience deriving insights from mutlidimensional data using statistical and machine learning methods. My recent work focuses on analysis of sleep study data to find lipidomic biomarkers that are circadian, and entails a hands-on approach through the full data lifecycle from raw instrument data collection to munging, analysis, visualization and results write-up. Core skill sets:

Experience

Research Specialist

Div. of Sleep & Circadian Disorders, Brigham & Women’s Hospital

Boston, MA

Current - Jan 2016

Focus: Identifying circadian lipidomic biomarkers to link sleep restriction to diabetes, and cardiovascular risk, and to report circadian phase and alignment

  • Translated existing SAS code for cosinor models to R, and applied other field specifc specialized algorithms to find rhythmicity and compare results with cosinor methods
  • Wrote reusable analytic pipeline in R for using above algorithms to find Circadian Rhythms in numerous lipidomic datasets relating to sleep studies under different conditions with collaborators
  • Built and maintained lipidomics pipeline - Automated the identification of lipids from mass spec data using in-house curated database, significantly reducing time and manual effort required from researchers
  • Evaluated and configured software for quantitation of mass spec data. Established overall Data Management process and SOPs for creating and sharing data with collaborators
  • Manage a mix of Windows servers for High Performance Computing, Linux Servers for hosting databases, and webservers (nginx) for hosting apps built with R/Shiny and Python/Flask

Research Specialist

Dept. of Neurosurgery, Brigham & Women’s Hospital

Boston, MA

Jan 2016 - Apr 2007

Focus: Linking metabolomic and proteomic profiles to risk of future disease – specifically breast cancer and Type II Diabetes.

  • Applied statistical and informatics analysis to large experimental clinical studies
  • Analyzed mass spec data relating proteomic profiles to understand effects of Calorie Restriction on longevity as part of the CALERIE trial
  • Used informatics analysis to assess impacts of specimen quality and integrity on the identification of biomarkers
  • Created data shares, built data pipelines, and managed onsite and remote backups of personnel and instrument data

Senior Research Assitant III

Burke Medical Research Institute

White Plains, NY

Apr 2007 - Sep 2005

  • Performed informatics analysis of metabolomic profiles from Dietary restriction studies in order to identify biomarkers predicting the risk of Type II Diabetes
  • Used ML & statistical approaches to determine predictors of rehabilitation outcomes for patients with traumatic brain injuries
  • Interfaced lab instruments with computers for data collection and recovery

Graduate Research Assistant

Bioinformatics Lab, Marquette University

Milwaukee, WI

May 2005 - Sep 2004

  • Masters’ Thesis: Developed a software system to curate bio-medical literature, including automated data collection and management, application of ML algorithms to find and rank relevant literature, and development of a web interface to display results
  • System Administration: Managed user accounts, performed troubleshooting, system backups and database setup for Windows and Unix/Linux operating systems and servers, and configured new Bioinformatics analysis software


Education

MS Bioinformatics

Marquette University & Medical College of Wisconsin

Milwaukee,WI

2005 - 2003

  • Thesis: An SVM based tool for the curation of biomedical literature

Post Grad. Diploma in Information Technology

University of Mumbai

Mumbai,India

2003 - 2002

B.Sc. Statistics & Operations Research

Ramnarain Ruia College, University of Mumbai

Mumbai,India

2002 - 1999